PHDcleav

A webserver to predict Dicer cleavage sites in pre-miRNA. PHDcleav can be used to investigate functional consequences of genetic variations/SNPs in miRNA on Dicer cleavage site, and gene silencing. it would also be useful in the discovery of miRNAs in human genome and design of Dicer specific pre-miRNAs for potent gene silencing. This tool can also be used to optimize and design more accurate site for Dicer cleavage in the shRNA/amiRNA.

PHDcleav citations

[…] in miRNA promoter regions on transcription factor binding, the dPORE-miRNA database can be queried (). Algorithms to predict Dicer cleavage patterns and preferential strand loading into RISC, such as PHDcleav and RISC binder (, ) could also be useful to assess the impact of variants. The predicted effect on Dicer cleavage and RISC binding induced by variants is incorporated in the miRvar database […]

library_books

Drosha Promotes Splicing of a Pre microRNA like Alternative Exon

2014

PLoS Genet

PMCID: 4006729

PMID: 24786770

DOI: 10.1371/journal.pgen.1004312

[…] mature miRNAs are generated from exon 5 in cells, we predicted miRNA sequences based on the identified Drosha cleavage sites and extrapolation of Dicer cleavage sites using the prediction algorithm, PHDcleav (). We designed stem-loop primers for reverse transcription that were specific for all predicted mature miRNA 3′ ends and the 3′ ends detected by 3′RACE (), and determined the actual cleavag […]